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analysis-tools

Code for analyzing data saved by the Open Ephys GUI

ca_source_extraction

Complete Matlab pipeline for large scale calcium imaging data analysis

caiman

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

cnmf_e

Constrained Nonnegative Matrix Factorization for microEndoscopic data

compdocs

cookbook-code

Recipes of the IPython Cookbook, the definitive guide to high-performance scientific computing and data science in Python

cookiecutter-data-science

A logical, reasonably standardized, but flexible project structure for doing and sharing data science work. Here adapted for neuroscience data analysis

data_navigator

datasets

deeplabcut

Official implementation of DeepLabCut: Markerless pose estimation of user-defined features with deep learning for all animals

deeplearningbook

MIT Deep Learning Book in PDF format

demo

a demo

dotfiles

:wrench: .files, including ~/.macos — sensible hacker defaults for macOS

fastbook

Draft of the fastai book

func_tests

gui

Software for electrophysiology data acquisition

jupyterlab_templates

Support for jupyter notebook templates in jupyterlab

kalman-and-bayesian-filters-in-python

Kalman Filter book using Jupyter Notebook. Focuses on building intuition and experience, not formal proofs. Includes Kalman filters,extended Kalman filters, unscented Kalman filters, particle filters, and more. All exercises include solutions.

kalmanpp2

Code for Psychophysics2 course

kilosort

GPU code for spike sorting

klustakwik2

Fast software for high-dimensional cluster analysis using the masked EM algorithm for Gaussians mixtures

klustaviewa

LEGACY - Graphical interface for spike sorting manual stage in Python

kwiklib

LEGACY - This project is only used in KlustaViewa

lecture0

luigi

Luigi is a Python module that helps you build complex pipelines of batch jobs. It handles dependency resolution, workflow management, visualization etc. It also comes with Hadoop support built in.

mathematica-tests

meet

Modular EEg Toolkit - MEET

memdynstats

Statistics add-ons for neural data analysis

mne-python

MNE : Magnetoencephalography (MEG) and Electroencephalography (EEG) in Python

mtspec

Python library for multitaper spectral estimations